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Protein

RNA-binding motif protein, Y chromosome, family 1 member F/J

Gene

RBMY1F

more
Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

RNA-binding protein which may be involved in spermatogenesis. Required for sperm development, possibly by participating in pre-mRNA splicing in the testis.1 Publication

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • RNA binding Source: UniProtKB

GO - Biological processi

  • mRNA processing Source: UniProtKB-KW
  • RNA splicing Source: UniProtKB-KW
  • spermatogenesis Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding motif protein, Y chromosome, family 1 member F/J
Alternative name(s):
Y chromosome RNA recognition motif 2
Gene namesi
Name:RBMY1F
Synonyms:YRRM2
AND
Name:RBMY1J
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome Y

Organism-specific databases

HGNCiHGNC:23974. RBMY1F.
HGNC:23917. RBMY1J.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134946298.

Polymorphism and mutation databases

BioMutaiRBMY1F.
DMDMi166199747.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 496496RNA-binding motif protein, Y chromosome, family 1 member F/JPRO_0000314164Add
BLAST

Proteomic databases

EPDiQ15415.
PaxDbiQ15415.
PRIDEiQ15415.

PTM databases

PhosphoSiteiQ15415.

Expressioni

Tissue specificityi

Testis-specific.1 Publication

Developmental stagei

Expressed in all of the transcriptionally active stages of germ cell development from spermatogonia through spermatocytes to round spermatids.

Gene expression databases

BgeeiQ15415.
CleanExiHS_RBMY1F.
ExpressionAtlasiQ15415. baseline.
GenevisibleiQ15415. HS.

Organism-specific databases

HPAiHPA001534.
HPA053147.

Interactioni

Subunit structurei

Interacts with splicing factor proteins SFRS3/SRP20, TRA2B/SFRS10, KHDRBS1/SAM68 and KHDRBS3.

Binary interactionsi

WithEntry#Exp.IntActNotes
AENQ8WTP83EBI-8642021,EBI-8637627
APOBEC3CQ9NRW33EBI-8642021,EBI-1044593
CBX2Q147813EBI-8642021,EBI-745934
CIRBPQ140113EBI-8642021,EBI-538850
CLK3P497613EBI-8642021,EBI-745579
FAM103A1Q9BTL33EBI-8642021,EBI-744023
HNRPKQ6IBN13EBI-8642021,EBI-3440248
PCDHB14Q9Y5E93EBI-8642021,EBI-10329013
PRPF31F1T0A53EBI-8642021,EBI-10177194
PRR3P795223EBI-8642021,EBI-2803328
RASD1Q9Y2723EBI-8642021,EBI-740818
RBM3P981793EBI-8642021,EBI-2949699
RBMXP381593EBI-8642021,EBI-743526
YTHDC1Q96MU73EBI-8642021,EBI-2849854
ZNF385CQ66K413EBI-8642021,EBI-10219231

Protein-protein interaction databases

BioGridi127736. 17 interactions.
IntActiQ15415. 16 interactions.
STRINGi9606.ENSP00000307155.

Structurei

3D structure databases

ProteinModelPortaliQ15415.
SMRiQ15415. Positions 1-108.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini8 – 8578RRMPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi254 – 34087Arg-richAdd
BLAST

Sequence similaritiesi

Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG410J6JX. Eukaryota.
ENOG4111GI6. LUCA.
GeneTreeiENSGT00710000106295.
HOGENOMiHOG000276235.
HOVERGENiHBG063314.
InParanoidiQ15415.
OMAiCGREHAG.
OrthoDBiEOG780RPD.
PhylomeDBiQ15415.
TreeFamiTF331833.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR012604. RBM1CTR.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF08081. RBM1CTR. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q15415-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MVEADHPGKL FIGGLNRETN EKMLKAVFGK HGPISEVLLI KDRTSKSRGF
60 70 80 90 100
AFITFENPAD AKNAAKDMNG TSLHGKAIKV EQAKKPSFQS GGRRRPPASS
110 120 130 140 150
RNRSPSGSLR SARGSSGGTR GWLPSHEGHL DDGGYTPDLK MSYSRGLIPV
160 170 180 190 200
KRGPSSRSGG PPPKKSAPSA VARSNSWMGS QGPMSQRREN YGVPPRRATI
210 220 230 240 250
SSWRNDRMST RHDGYATNDG NHPSCQETRD YAPPSRGYAY RDNGHSNRDE
260 270 280 290 300
HSSRGYRNHR SSRETRDYAP PSRGHAYRDY GHSRRDESYS RGYRNHRSSR
310 320 330 340 350
ETREYAPPSR GHGYRDYGHS RRHESYSRGY RNHPSSRETR DYAPPHRDYA
360 370 380 390 400
YRDYGHSSWD EHSSRGYSYH DGYGEALGRD HSEHLSGSSY RDALQRYGTS
410 420 430 440 450
HGAPPARGPR MSYGGSTCHA YSNTRDRYGR SWESYSSCGD FHYCDREHVC
460 470 480 490
RKDQRNPPSL GRVLPDPREA YGSSSYVASI VDGGESRSEK GDSSRY
Length:496
Mass (Da):55,728
Last modified:January 15, 2008 - v2
Checksum:i66AC50828D44E9A8
GO
Isoform 2 (identifier: Q15415-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     397-419: YGTSHGAPPARGPRMSYGGSTCH → DLSWCTTCKRASDVLWWKHLPRI
     420-496: Missing.

Show »
Length:419
Mass (Da):47,454
Checksum:i82D82D712CD1934E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti7 – 71P → A in CAA53660 (PubMed:8269511).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei397 – 41923YGTSH…GSTCH → DLSWCTTCKRASDVLWWKHL PRI in isoform 2. 1 PublicationVSP_030217Add
BLAST
Alternative sequencei420 – 49677Missing in isoform 2. 1 PublicationVSP_030218Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X76060 mRNA. Translation: CAA53660.1.
AK313597 mRNA. Translation: BAG36363.1.
AC023342 Genomic DNA. No translation available.
AC007320 Genomic DNA. No translation available.
BC030018 mRNA. Translation: AAH30018.1.
BC152392 mRNA. Translation: AAI52393.1.
CCDSiCCDS35483.1. [Q15415-1]
CCDS35484.1. [Q15415-1]
PIRiB49418.
RefSeqiNP_001006117.2. NM_001006117.3. [Q15415-1]
NP_001290339.1. NM_001303410.1. [Q15415-2]
NP_689798.1. NM_152585.2. [Q15415-1]
XP_011529781.1. XM_011531479.1. [Q15415-1]
XP_011529800.1. XM_011531498.1. [Q15415-1]
UniGeneiHs.567746.

Genome annotation databases

EnsembliENST00000250831; ENSP00000250831; ENSG00000226941. [Q15415-1]
ENST00000303766; ENSP00000307155; ENSG00000169800. [Q15415-1]
ENST00000414629; ENSP00000405745; ENSG00000226941. [Q15415-1]
GeneIDi159163.
378951.
KEGGihsa:159163.
hsa:378951.
UCSCiuc004fva.4. human. [Q15415-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X76060 mRNA. Translation: CAA53660.1.
AK313597 mRNA. Translation: BAG36363.1.
AC023342 Genomic DNA. No translation available.
AC007320 Genomic DNA. No translation available.
BC030018 mRNA. Translation: AAH30018.1.
BC152392 mRNA. Translation: AAI52393.1.
CCDSiCCDS35483.1. [Q15415-1]
CCDS35484.1. [Q15415-1]
PIRiB49418.
RefSeqiNP_001006117.2. NM_001006117.3. [Q15415-1]
NP_001290339.1. NM_001303410.1. [Q15415-2]
NP_689798.1. NM_152585.2. [Q15415-1]
XP_011529781.1. XM_011531479.1. [Q15415-1]
XP_011529800.1. XM_011531498.1. [Q15415-1]
UniGeneiHs.567746.

3D structure databases

ProteinModelPortaliQ15415.
SMRiQ15415. Positions 1-108.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi127736. 17 interactions.
IntActiQ15415. 16 interactions.
STRINGi9606.ENSP00000307155.

PTM databases

PhosphoSiteiQ15415.

Polymorphism and mutation databases

BioMutaiRBMY1F.
DMDMi166199747.

Proteomic databases

EPDiQ15415.
PaxDbiQ15415.
PRIDEiQ15415.

Protocols and materials databases

DNASUi159163.
378951.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000250831; ENSP00000250831; ENSG00000226941. [Q15415-1]
ENST00000303766; ENSP00000307155; ENSG00000169800. [Q15415-1]
ENST00000414629; ENSP00000405745; ENSG00000226941. [Q15415-1]
GeneIDi159163.
378951.
KEGGihsa:159163.
hsa:378951.
UCSCiuc004fva.4. human. [Q15415-1]

Organism-specific databases

CTDi159163.
378951.
GeneCardsiRBMY1F.
RBMY1J.
HGNCiHGNC:23974. RBMY1F.
HGNC:23917. RBMY1J.
HPAiHPA001534.
HPA053147.
MIMi400006. gene.
neXtProtiNX_Q15415.
PharmGKBiPA134946298.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410J6JX. Eukaryota.
ENOG4111GI6. LUCA.
GeneTreeiENSGT00710000106295.
HOGENOMiHOG000276235.
HOVERGENiHBG063314.
InParanoidiQ15415.
OMAiCGREHAG.
OrthoDBiEOG780RPD.
PhylomeDBiQ15415.
TreeFamiTF331833.

Miscellaneous databases

NextBioi87890.
PROiQ15415.
SOURCEiSearch...

Gene expression databases

BgeeiQ15415.
CleanExiHS_RBMY1F.
ExpressionAtlasiQ15415. baseline.
GenevisibleiQ15415. HS.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR012604. RBM1CTR.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF08081. RBM1CTR. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A Y chromosome gene family with RNA-binding protein homology: candidates for the azoospermia factor AZF controlling human spermatogenesis."
    Ma K., Inglis J.D., Sharkey A., Bickmore W.A., Hill R.E., Prosser E.J., Speedson R.M., Thomson E.J., Jobling M.
    Cell 75:1287-1295(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), FUNCTION, TISSUE SPECIFICITY.
    Tissue: Testis.
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Testis.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Testis.

Entry informationi

Entry nameiRBY1F_HUMAN
AccessioniPrimary (citable) accession number: Q15415
Secondary accession number(s): B2R916
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: January 15, 2008
Last modified: May 11, 2016
This is version 127 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Miscellaneous

The RBMY1 proteins are encoded by repeated regions of the Y chromosome, mostly within the AZFb region. The exact number of functional copies is unclear and may vary between individuals, and some of them may represent pseudogenes. The proteins are very similar, which makes the characterization of each protein difficult. Thus, most experiments do not discriminate between the different members. One can therefore suppose that reported interactions with a RBMY1 protein involve all the proteins.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome Y
    Human chromosome Y: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.